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Protein

WD repeat-containing protein 46

Gene

WDR46

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 4 out of 5-Experimental evidence at protein leveli

Functioni

Scaffold component of the nucleolar structure. Required for localization of DDX21 and NCL to the granular compartment of the nucleolus.1 Publication

GO - Molecular functioni

  1. poly(A) RNA binding Source: UniProtKB

GO - Biological processi

  1. maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA) Source: GO_Central
Complete GO annotation...

Enzyme and pathway databases

SignaLinkiO15213.

Names & Taxonomyi

Protein namesi
Recommended name:
WD repeat-containing protein 46
Alternative name(s):
WD repeat-containing protein BING4
Gene namesi
Name:WDR46
Synonyms:BING4, C6orf11
ORF Names:FP221
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
ProteomesiUP000005640 Componentsi: Chromosome 6, Unplaced

Organism-specific databases

HGNCiHGNC:13923. WDR46.

Subcellular locationi

Nucleusnucleolus 1 Publication

GO - Cellular componenti

  1. 90S preribosome Source: GO_Central
  2. nucleolus Source: GO_Central
  3. small-subunit processome Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Nucleus

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA25924.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 610610WD repeat-containing protein 46PRO_0000051395Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei41 – 411Phosphoserine3 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiO15213.
PaxDbiO15213.
PRIDEiO15213.

PTM databases

PhosphoSiteiO15213.

Expressioni

Gene expression databases

BgeeiO15213.
CleanExiHS_WDR46.
ExpressionAtlasiO15213. baseline and differential.
GenevestigatoriO15213.

Organism-specific databases

HPAiHPA043004.

Interactioni

Subunit structurei

Interacts with DDX21, NCL, NOP2 and EBNA1BP2.1 Publication

Protein-protein interaction databases

BioGridi114694. 5 interactions.
MINTiMINT-4994039.
STRINGi9606.ENSP00000363746.

Structurei

3D structure databases

ProteinModelPortaliO15213.
SMRiO15213. Positions 268-389.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati193 – 23442WD 1Add
BLAST
Repeati235 – 27238WD 2Add
BLAST
Repeati274 – 31239WD 3Add
BLAST
Repeati315 – 35440WD 4Add
BLAST
Repeati357 – 39640WD 5Add
BLAST
Repeati399 – 43638WD 6Add
BLAST

Sequence similaritiesi

Contains 6 WD repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, WD repeat

Phylogenomic databases

eggNOGiNOG301990.
GeneTreeiENSGT00390000007075.
HOVERGENiHBG050687.
InParanoidiO15213.
KOiK14768.
OMAiASEMAQT.
PhylomeDBiO15213.
TreeFamiTF300861.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR012952. BING4_C_dom.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF08149. BING4CT. 1 hit.
PF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM01033. BING4CT. 1 hit.
SM00320. WD40. 4 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

O15213-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
METAPKPGKD VPPKKDKLQT KRKKPRRYWE EETVPTTAGA SPGPPRNKKN
60 70 80 90 100
RELRPQRPKN AYILKKSRIS KKPQVPKKPR EWKNPESQRG LSGTQDPFPG
110 120 130 140 150
PAPVPVEVVQ KFCRIDKSRK LPHSKAKTRS RLEVAEAEEE ETSIKAARSE
160 170 180 190 200
LLLAEEPGFL EGEDGEDTAK ICQADIVEAV DIASAAKHFD LNLRQFGPYR
210 220 230 240 250
LNYSRTGRHL AFGGRRGHVA ALDWVTKKLM CEINVMEAVR DIRFLHSEAL
260 270 280 290 300
LAVAQNRWLH IYDNQGIELH CIRRCDRVTR LEFLPFHFLL ATASETGFLT
310 320 330 340 350
YLDVSVGKIV AALNARAGRL DVMSQNPYNA VIHLGHSNGT VSLWSPAMKE
360 370 380 390 400
PLAKILCHRG GVRAVAVDST GTYMATSGLD HQLKIFDLRG TYQPLSTRTL
410 420 430 440 450
PHGAGHLAFS QRGLLVAGMG DVVNIWAGQG KASPPSLEQP YLTHRLSGPV
460 470 480 490 500
HGLQFCPFED VLGVGHTGGI TSMLVPGAGE PNFDGLESNP YRSRKQRQEW
510 520 530 540 550
EVKALLEKVP AELICLDPRA LAEVDVISLE QGKKEQIERL GYDPQAKAPF
560 570 580 590 600
QPKPKQKGRS STASLVKRKR KVMDEEHRDK VRQSLQQQHH KEAKAKPTGA
610
RPSALDRFVR
Length:610
Mass (Da):68,071
Last modified:November 29, 2010 - v3
Checksum:i0C11DA8ED92CA39E
GO

Natural variant

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Natural varianti94 – 941T → A.3 Publications
Corresponds to variant rs3130257 [ dbSNP | Ensembl ].
VAR_053433
Natural varianti124 – 1241S → Y.
Corresponds to variant rs34704405 [ dbSNP | Ensembl ].
VAR_053434
Natural varianti341 – 3411V → A.1 Publication
Corresponds to variant rs14398 [ dbSNP | Ensembl ].
VAR_022025

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF447870 mRNA. Translation: AAQ04645.1.
AL662820 Genomic DNA. Translation: CAI18113.1.
AL662827 Genomic DNA. Translation: CAI17516.1.
AL844527, BX000343 Genomic DNA. Translation: CAI41833.1.
BX000343, AL844527 Genomic DNA. Translation: CAI41830.1.
Z97184, AL031228 Genomic DNA. Translation: CAB09994.2.
BC000388 mRNA. Translation: AAH00388.1.
CCDSiCCDS4772.1.
RefSeqiNP_001157739.1. NM_001164267.1.
NP_005443.3. NM_005452.5.
UniGeneiHs.520063.
Hs.671763.

Genome annotation databases

EnsembliENST00000374617; ENSP00000363746; ENSG00000227057.
ENST00000383208; ENSP00000372695; ENSG00000206284.
ENST00000432609; ENSP00000402869; ENSG00000236222.
ENST00000432933; ENSP00000399454; ENSG00000204221.
ENST00000457382; ENSP00000405614; ENSG00000226916.
GeneIDi9277.
KEGGihsa:9277.
UCSCiuc003ods.3. human.

Keywords - Coding sequence diversityi

Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF447870 mRNA. Translation: AAQ04645.1.
AL662820 Genomic DNA. Translation: CAI18113.1.
AL662827 Genomic DNA. Translation: CAI17516.1.
AL844527, BX000343 Genomic DNA. Translation: CAI41833.1.
BX000343, AL844527 Genomic DNA. Translation: CAI41830.1.
Z97184, AL031228 Genomic DNA. Translation: CAB09994.2.
BC000388 mRNA. Translation: AAH00388.1.
CCDSiCCDS4772.1.
RefSeqiNP_001157739.1. NM_001164267.1.
NP_005443.3. NM_005452.5.
UniGeneiHs.520063.
Hs.671763.

3D structure databases

ProteinModelPortaliO15213.
SMRiO15213. Positions 268-389.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi114694. 5 interactions.
MINTiMINT-4994039.
STRINGi9606.ENSP00000363746.

PTM databases

PhosphoSiteiO15213.

Proteomic databases

MaxQBiO15213.
PaxDbiO15213.
PRIDEiO15213.

Protocols and materials databases

DNASUi9277.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000374617; ENSP00000363746; ENSG00000227057.
ENST00000383208; ENSP00000372695; ENSG00000206284.
ENST00000432609; ENSP00000402869; ENSG00000236222.
ENST00000432933; ENSP00000399454; ENSG00000204221.
ENST00000457382; ENSP00000405614; ENSG00000226916.
GeneIDi9277.
KEGGihsa:9277.
UCSCiuc003ods.3. human.

Organism-specific databases

CTDi9277.
GeneCardsiGC06M033246.
GC06Mj33168.
GC06Mk33224.
GC06Mm33417.
GC06Mn33175.
H-InvDBHIX0058254.
HGNCiHGNC:13923. WDR46.
HPAiHPA043004.
MIMi611440. gene.
neXtProtiNX_O15213.
PharmGKBiPA25924.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiNOG301990.
GeneTreeiENSGT00390000007075.
HOVERGENiHBG050687.
InParanoidiO15213.
KOiK14768.
OMAiASEMAQT.
PhylomeDBiO15213.
TreeFamiTF300861.

Enzyme and pathway databases

SignaLinkiO15213.

Miscellaneous databases

ChiTaRSiWDR46. human.
GeneWikiiWDR46.
GenomeRNAii9277.
NextBioi34769.
PROiO15213.
SOURCEiSearch...

Gene expression databases

BgeeiO15213.
CleanExiHS_WDR46.
ExpressionAtlasiO15213. baseline and differential.
GenevestigatoriO15213.

Family and domain databases

Gene3Di2.130.10.10. 1 hit.
InterProiIPR012952. BING4_C_dom.
IPR015943. WD40/YVTN_repeat-like_dom.
IPR001680. WD40_repeat.
IPR017986. WD40_repeat_dom.
[Graphical view]
PfamiPF08149. BING4CT. 1 hit.
PF00400. WD40. 1 hit.
[Graphical view]
SMARTiSM01033. BING4CT. 1 hit.
SM00320. WD40. 4 hits.
[Graphical view]
SUPFAMiSSF50978. SSF50978. 1 hit.
PROSITEiPS50082. WD_REPEATS_2. 1 hit.
PS50294. WD_REPEATS_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "Large-scale cDNA transfection screening for genes related to cancer development and progression."
    Wan D., Gong Y., Qin W., Zhang P., Li J., Wei L., Zhou X., Li H., Qiu X., Zhong F., He L., Yu J., Yao G., Jiang H., Qian L., Yu Y., Shu H., Chen X.
    , Xu H., Guo M., Pan Z., Chen Y., Ge C., Yang S., Gu J.
    Proc. Natl. Acad. Sci. U.S.A. 101:15724-15729(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT ALA-94.
  2. "The DNA sequence and analysis of human chromosome 6."
    Mungall A.J., Palmer S.A., Sims S.K., Edwards C.A., Ashurst J.L., Wilming L., Jones M.C., Horton R., Hunt S.E., Scott C.E., Gilbert J.G.R., Clamp M.E., Bethel G., Milne S., Ainscough R., Almeida J.P., Ambrose K.D., Andrews T.D.
    , Ashwell R.I.S., Babbage A.K., Bagguley C.L., Bailey J., Banerjee R., Barker D.J., Barlow K.F., Bates K., Beare D.M., Beasley H., Beasley O., Bird C.P., Blakey S.E., Bray-Allen S., Brook J., Brown A.J., Brown J.Y., Burford D.C., Burrill W., Burton J., Carder C., Carter N.P., Chapman J.C., Clark S.Y., Clark G., Clee C.M., Clegg S., Cobley V., Collier R.E., Collins J.E., Colman L.K., Corby N.R., Coville G.J., Culley K.M., Dhami P., Davies J., Dunn M., Earthrowl M.E., Ellington A.E., Evans K.A., Faulkner L., Francis M.D., Frankish A., Frankland J., French L., Garner P., Garnett J., Ghori M.J., Gilby L.M., Gillson C.J., Glithero R.J., Grafham D.V., Grant M., Gribble S., Griffiths C., Griffiths M.N.D., Hall R., Halls K.S., Hammond S., Harley J.L., Hart E.A., Heath P.D., Heathcott R., Holmes S.J., Howden P.J., Howe K.L., Howell G.R., Huckle E., Humphray S.J., Humphries M.D., Hunt A.R., Johnson C.M., Joy A.A., Kay M., Keenan S.J., Kimberley A.M., King A., Laird G.K., Langford C., Lawlor S., Leongamornlert D.A., Leversha M., Lloyd C.R., Lloyd D.M., Loveland J.E., Lovell J., Martin S., Mashreghi-Mohammadi M., Maslen G.L., Matthews L., McCann O.T., McLaren S.J., McLay K., McMurray A., Moore M.J.F., Mullikin J.C., Niblett D., Nickerson T., Novik K.L., Oliver K., Overton-Larty E.K., Parker A., Patel R., Pearce A.V., Peck A.I., Phillimore B.J.C.T., Phillips S., Plumb R.W., Porter K.M., Ramsey Y., Ranby S.A., Rice C.M., Ross M.T., Searle S.M., Sehra H.K., Sheridan E., Skuce C.D., Smith S., Smith M., Spraggon L., Squares S.L., Steward C.A., Sycamore N., Tamlyn-Hall G., Tester J., Theaker A.J., Thomas D.W., Thorpe A., Tracey A., Tromans A., Tubby B., Wall M., Wallis J.M., West A.P., White S.S., Whitehead S.L., Whittaker H., Wild A., Willey D.J., Wilmer T.E., Wood J.M., Wray P.W., Wyatt J.C., Young L., Younger R.M., Bentley D.R., Coulson A., Durbin R.M., Hubbard T., Sulston J.E., Dunham I., Rogers J., Beck S.
    Nature 425:805-811(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], VARIANT ALA-341.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA], VARIANT ALA-94.
    Tissue: Lung.
  4. "TAPASIN, DAXX, RGL2, HKE2 and four new genes (BING 1, 3 to 5) form a dense cluster at the centromeric end of the MHC."
    Herberg J.A., Beck S., Trowsdale J.
    J. Mol. Biol. 277:839-857(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA] OF 1-372, VARIANT ALA-94.
  5. "Combining protein-based IMAC, peptide-based IMAC, and MudPIT for efficient phosphoproteomic analysis."
    Cantin G.T., Yi W., Lu B., Park S.K., Xu T., Lee J.-D., Yates J.R. III
    J. Proteome Res. 7:1346-1351(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-41, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  6. Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-41, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Cervix carcinoma.
  7. "Nucleolar scaffold protein, WDR46, determines the granular compartmental localization of nucleolin and DDX21."
    Hirai Y., Louvet E., Oda T., Kumeta M., Watanabe Y., Horigome T., Takeyasu K.
    Genes Cells 18:780-797(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH DDX21; NCL; NOP2 AND EBNA1BP2.
  8. "An enzyme assisted RP-RPLC approach for in-depth analysis of human liver phosphoproteome."
    Bian Y., Song C., Cheng K., Dong M., Wang F., Huang J., Sun D., Wang L., Ye M., Zou H.
    J. Proteomics 96:253-262(2013) [PubMed] [Europe PMC] [Abstract]
    Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-41, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
    Tissue: Liver.

Entry informationi

Entry nameiWDR46_HUMAN
AccessioniPrimary (citable) accession number: O15213
Secondary accession number(s): A6NDP5
, Q5HYZ0, Q5STK5, Q5STR3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 26, 2002
Last sequence update: November 29, 2010
Last modified: March 3, 2015
This is version 127 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 6
    Human chromosome 6: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.